The Lee FCD is carbide and tapered. You can push the cases thru with enough force, but it isn't good for the cases and your carbide may frown on it. You could possibly mar, gall, or micro crack the carbide ring. The 9mm base is listed as .394 and the mouth at .380. If the brass is pushed all the way thru the FCD, then that .394 is subject to the .380 dimensions. Not exact as not all brass or dies are all created equal. But you get the idea. You could get another shell holder and shave it a bit if you wanted to get a tad more thru the sizer. Me, I'd toss and move on. I run all range brass thru the headspace gage and kerplunk before reloading. 40 is straight wall so it can be bulge busted.
Using the Makarov as a bulge buster is up to you. The Makarov is .392 (Sierra p767 & Lyman49th p360) at the base and .391 at the mouth (Sierra) or .390 per the Lyman. That's kind of straight I guess. It gets down to the brass base vs the narrowest part of your Mak die.
9mm is shot so much that range brass is plentiful. I'd just toss the 9mm's that fail the cage gage and kerplunk test after the sizer.